pybiolib 1.2.561__tar.gz → 1.2.565__tar.gz

{pybiolib-1.2.561 → pybiolib-1.2.565}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: pybiolib
-Version: 1.2.561
+Version: 1.2.565
 Summary: BioLib Python Client
 License: MIT
 Keywords: biolib

{pybiolib-1.2.561 → pybiolib-1.2.565}/biolib/compute_node/job_worker/executors/docker_executor.py

@@ -201,9 +201,6 @@ class DockerExecutor:
             stream=True,
         )
 
-        logger_no_user_data.debug(f'Running diff for Docker container for {job_uuid}')
-        pre_start_diff = self._container.diff()
-
         logger_no_user_data.debug(f'Starting Docker container for {job_uuid}')
         startup_error_string: Optional[str] = None
         try:
@@ -218,7 +215,6 @@ class DockerExecutor:
         self._metadata_for_save_output_on_cancel = MetadataToSaveOutput(
             arguments=module_input['arguments'],
             startup_error_string=startup_error_string,
-            pre_start_diff=pre_start_diff,
         )
 
         if self._options['job']['app_version'].get('stdout_render_type') != 'markdown':
@@ -264,7 +260,6 @@ class DockerExecutor:
             module_output_path=self._options['module_output_path'],
             stderr=full_stderr,
             stdout=full_stdout,
-            pre_start_diff=metadata['pre_start_diff'],
         )
 
     def cleanup(self):
@@ -532,12 +527,11 @@ class DockerExecutor:
         module_output_path: str,
         stderr: bytes,
         stdout: bytes,
-        pre_start_diff: List[Dict],
     ) -> None:
         mapped_files: List[FileInContainer] = []
         try:
             mappings = Mappings(mappings_list=self._options['module']['output_files_mappings'], arguments=arguments)
-            changed_files: List[FileInContainer] = self._get_changed_files_in_docker_container(pre_start_diff)
+            changed_files: List[FileInContainer] = self._get_changed_files_in_docker_container()
 
             for file in changed_files:
                 if file.is_file():
@@ -602,15 +596,13 @@ class DockerExecutor:
 
         return None
 
-    def _get_changed_files_in_docker_container(self, pre_start_diff: List[Dict]) -> List[FileInContainer]:
+    def _get_changed_files_in_docker_container(self) -> List[FileInContainer]:
         from_mappings = [mapping['from_path'] for mapping in self._options['module']['output_files_mappings']]
-        pre_start_diff_paths = [obj['Path'] for obj in pre_start_diff]
         post_run_diff = self._container.diff()
         run_diff_paths: List[str] = [
             obj['Path']
             for obj in post_run_diff
             if obj['Kind'] in (DockerDiffKind.CHANGED.value, DockerDiffKind.ADDED.value)
-            and obj['Path'] not in pre_start_diff_paths
         ]
 
         known_directories = set()

{pybiolib-1.2.561 → pybiolib-1.2.565}/biolib/compute_node/job_worker/executors/types.py

@@ -46,4 +46,3 @@ class LocalExecutorOptions(TypedDict):
 class MetadataToSaveOutput(TypedDict):
     arguments: List[str]
     startup_error_string: Optional[str]
-    pre_start_diff: List[Dict]

{pybiolib-1.2.561 → pybiolib-1.2.565}/pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "pybiolib"
-version = "1.2.561"
+version = "1.2.565"
 description = "BioLib Python Client"
 readme = "PYPI_README.md"
 license = "MIT"